A B C D E F G H I J L M N O P Q R S T U V W X Y Z

G

get(float, float, float) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Vector3

get(int) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Vector3

get(float[]) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Vector3

get(Vector3) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Vector3

get() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.SwingWorker

Return the value created by the construct method.

get() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.SwingWorker.ThreadVar

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getAbbrev() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getAbbrev() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getAbsDeviation() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getAtom1CoordX() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Bond

getAtom1CoordY() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Bond

getAtom1CoordZ() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Bond

getAtom2CoordX() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Bond

getAtom2CoordY() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Bond

getAtom2CoordZ() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Bond

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getAtoms() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

return all atoms in concrete aminoacid molecule

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getAvgDihedralAngle() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getBackboneAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getBackboneAtomsWithoutOcarbonyl() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getBackboneBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getBonds() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

return all COVALENT non-SS bonds in concrete aminoacid molecule

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getBonds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getBoundXmax() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getBoundXmin() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getBoundYmax() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getBoundYmin() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getBoundZmax() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getBoundZmin() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getCcarbonyl() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getChain(char) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFile

getChainsIds() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFile

Gives chain ids (each is a one-letter).

getColor(float) - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.ColorScheme

This function should be overriden by implementing classes, providing a recipe for color components calculations.

getColor(float) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PinkBlue

getColor(float) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.RedGreen

getCoordOfCepsilon2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordOfCepsilon3() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordOfCeta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordOfCzeta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordOfCzeta3() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordOfNepsilon1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordsOfCalpha() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfCbeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getCoordsOfCcarbonyl() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getCoordsOfCdelta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getCoordsOfCdelta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getCoordsOfCdelta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getCoordsOfCdelta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getCoordsOfCdelta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getCoordsOfCdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getCoordsOfCdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getCoordsOfCdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getCoordsOfCdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordsOfCdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfCdelta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getCoordsOfCdelta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getCoordsOfCdelta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getCoordsOfCdelta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordsOfCdelta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfCepsilon() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getCoordsOfCepsilon() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getCoordsOfCepsilon() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getCoordsOfCepsilon1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getCoordsOfCepsilon1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getCoordsOfCepsilon1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfCepsilon2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getCoordsOfCepsilon2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getCoordsOfCgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfCgamma1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getCoordsOfCgamma1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getCoordsOfCgamma2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getCoordsOfCgamma2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getCoordsOfCgamma2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getCoordsOfCzeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getCoordsOfCzeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfNamid() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getCoordsOfNdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getCoordsOfNdelta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getCoordsOfNdelta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getCoordsOfNepsilon() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getCoordsOfNepsilon2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getCoordsOfNepsilon2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getCoordsOfNeta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getCoordsOfNeta2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getCoordsOfNzeta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getCoordsOfOcarbonyl() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getCoordsOfOdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getCoordsOfOdelta1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getCoordsOfOepsilon1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getCoordsOfOepsilon1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getCoordsOfOepsilon2() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getCoordsOfOgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getCoordsOfOgamma1() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getCoordsOfOhyroxyl() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getCoordsOfSdelta() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getCoordsOfSgamma() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getCoordX() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Atom

getCoordXYZ() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Atom

getCoordY() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Atom

getCoordZ() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Atom

getDescription() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.FFilter

Returns the human readable description of this filter.

getDeviation() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getExtension(File) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.FFilter

Return the extension portion of the file's name .

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getHydropathy() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getHydropathy() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getId() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getImageType() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.Surface

getIndexOf(Aminoacid) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getLnRadiusOfCurvature() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getMass() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getMass() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getMaxAbsDeviation() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMaxAvgDihedralAngle() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMaxDeviation() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMaxLnRadius() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMaxValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.AbsDeviation

getMaxValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.AvgDihedralAngle

getMaxValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.Deviation

getMaxValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.LnCurvature

getMaxValue(Peptide) - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.Plottable

getMinAbsDeviation() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMinAvgDihedralAngle() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMinDeviation() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMinLnRadius() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getMinValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.AbsDeviation

getMinValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.AvgDihedralAngle

getMinValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.Deviation

getMinValue(Peptide) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.LnCurvature

getMinValue(Peptide) - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.Plottable

getNamid() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getNumOfChains() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFile

Gives the number of chains (mainly separate polypeptides) of which crystallographic data was stored in a pdb file.

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getNumOfNonHAtoms() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getNumOfNonHAtoms() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getPdbFile() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFetcher

Get pdb file read by the PdbFetcher.

getPdbFtp(String) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFetcher

Retrieve peptide structure as a gzipped PDB file via http protocol.

getPdbId() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFetcher

Allows to read PDB ID of the PdbFetcher.

getPdbId() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFile

Gives PDB ID in uppercase for this PdbFile object.

getPdbLoad(String) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PdbFetcher

Load the structure from a non-compressed PDB file on the local filesystem.

getPhiAngle() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getPI() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getPI() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getPsiAngle() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getResidue(int) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getResiduePdbIndex() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aminoacid

getResidues() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.Peptide

getRotationMatrix() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.StructureRenderer

getScreenshotBuffer() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PlotRenderer

getScreenshotBuffer() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.Screenshottable

getScreenshotBuffer() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.StructureRenderer

getScreenshotDims() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.PlotRenderer

getScreenshotDims() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.Screenshottable

getScreenshotDims() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.StructureRenderer

getSelectedChainId() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.ChainChooser

getSleepAmount() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.Surface

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Alanine

getSymbol() - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.AminoacidProperties

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Arginine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Asparagine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Aspartate

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Cysteine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Histidine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Isoleucine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Leucine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Lysine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Methionine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Phenylalanine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Proline

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Serine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Threonine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tryptophan

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Tyrosine

getSymbol() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Valine

getValue(Aminoacid) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.AbsDeviation

getValue(Aminoacid) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.AvgDihedralAngle

getValue(Aminoacid) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.Deviation

getValue(Aminoacid) - Method in class pl.krakow.cmuj.bioinformatics.jellipse.LnCurvature

getValue(Aminoacid) - Method in interface pl.krakow.cmuj.bioinformatics.jellipse.Plottable

getValue() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.SwingWorker

Get the value produced by the worker thread, or null if it hasn't been constructed yet.

getW() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Quaternion

Gets the scalar value of the quaternion.

getX() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Quaternion

Gets the first vector value of the quaternion.

getY() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Quaternion

Gets the second vector value of the quaternion.

getZ() - Method in class pl.krakow.cmuj.bioinformatics.jellipse.mathtoolkit.Quaternion

Gets the third vector value of the quaternion.

glCanvasMolecule - Variable in class pl.krakow.cmuj.bioinformatics.jellipse.jEllipse

glCanvasPlot - Variable in class pl.krakow.cmuj.bioinformatics.jellipse.jEllipse

glcaps - Variable in class pl.krakow.cmuj.bioinformatics.jellipse.jEllipse

glEvL - Variable in class pl.krakow.cmuj.bioinformatics.jellipse.ScreenShot

Glutamate - Class in pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids

A glutamate molecule.

Glutamate(String, Map) - Constructor for class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamate

Creates a new instance of the Glutamate aminoacid.

Glutamine - Class in pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids

A glutamine molecule.

Glutamine(String, Map) - Constructor for class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glutamine

Creates a new instance of the Glutamine aminoacid.

Glycine - Class in pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids

A glycine molecule.

Glycine(String, Map) - Constructor for class pl.krakow.cmuj.bioinformatics.jellipse.chemtoolkit.aminoacids.Glycine

Creates a new instance of the Alanine aminoacid.

golden - Variable in class pl.krakow.cmuj.bioinformatics.jellipse.PlotRenderer

gray - Variable in class pl.krakow.cmuj.bioinformatics.jellipse.StructureRenderer

green - Variable in class pl.krakow.cmuj.bioinformatics.jellipse.StructureRenderer